Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Database: Trifolium_20pratense_20[genbank_20GCA_5F900079335.1_202016-04-15] 39,051 sequences; 345,990,850 total letters Query= NC_018875.1 Length=119082 Score E Sequences producing significant alignments: (Bits) Value seq28626 129 4e-25 seq28674 123 2e-23 seq3 100 2e-16 seq4 91.5 1e-13 seq1 91.5 1e-13 seq28803 89.7 4e-13 >seq28626 Length=87040 Score = 129 bits (142), Expect = 4e-25 Identities = 143/191 (75%), Gaps = 0/191 (0%) Strand=Plus/Plus Query 48576 TCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCCAACTGCTTACCGGCAAAT 48635 ||||| |||||||| ||||||| ||| ||| | || || | ||| ||||||||||| Sbjct 42173 TCTTTCTGAATATTATAATCAGCAAGAGTTCATCCATCCTCAAGCTGTTTACCGGCAAAG 42232 Query 48636 ATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAA 48695 |||| |||||||||||| | |||| |||||||| || |||||| || ||| | Sbjct 42233 ATCAATCGCTGTTGATCAGGTGGAATCCCCTCCTTATCCTGAATCTTGGCCTTCACATTA 42292 Query 48696 CCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACA 48755 | | || || || ||||||||| | |||||||| || |||||||| || || ||| Sbjct 42293 TCAATAGTATCAGAACTCTCCACCTCAAGAGTAATCGTCTTCCCCGTCAACGTCTTCACA 42352 Query 48756 AAAATCTGCAT 48766 ||||||||||| Sbjct 42353 AAAATCTGCAT 42363 Score = 87.8 bits (96), Expect = 1e-12 Identities = 147/213 (69%), Gaps = 0/213 (0%) Strand=Plus/Plus Query 48558 ACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCC 48617 |||||||||||||| |||||| || ||||| ||||| | ||| | | | || ||| Sbjct 42383 ACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCCGCAAGAGTCCTCCCATCTTCC 42442 Query 48618 AACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTA 48677 || ||||| || ||||| |||| |||||| ||||| | |||| || |||||||| Sbjct 42443 AATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGGAATTCCTTCCTTGTCTTGG 42502 Query 48678 ATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTT 48737 || || ||| || | | | || || | || ||||| | || || ||||| Sbjct 42503 ATTTTGGCTTTGACGTTGTCGATGGTATCGGAGGATTCTACCTCTAGGGTTATGGTTTTG 42562 Query 48738 CCCGTCAAAGTTTTTACAAAAATCTGCATCGTG 48770 || || | ||||| || || |||||||| ||| Sbjct 42563 CCGGTTAGGGTTTTCACGAAGATCTGCATGGTG 42595 >seq28674 Length=75340 Score = 123 bits (136), Expect = 2e-23 Identities = 142/191 (74%), Gaps = 0/191 (0%) Strand=Plus/Minus Query 48576 TCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCCAACTGCTTACCGGCAAAT 48635 ||||| |||||||| ||||||| ||| | | | || || | ||| ||||| ||||| Sbjct 21234 TCTTTCTGAATATTATAATCAGCAAGAGTCCTTCCATCTTCAAGCTGTTTACCAGCAAAG 21175 Query 48636 ATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAA 48695 |||| |||||| ||||| | |||| |||||||| || |||||| || ||| | Sbjct 21174 ATCAATCGCTGCTGATCAGGTGGAATCCCCTCCTTATCCTGAATCTTCGCCTTCACATTA 21115 Query 48696 CCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACA 48755 | | || || || ||||||||||| |||||||| ||||||||||| || || ||| Sbjct 21114 TCAATAGTATCAGAACTCTCCACCTCCAAAGTAATCGTCTTTCCCGTCAACGTCTTCACA 21055 Query 48756 AAAATCTGCAT 48766 ||||||||||| Sbjct 21054 AAAATCTGCAT 21044 >seq3 Length=31061273 Score = 100 bits (110), Expect = 2e-16 Identities = 153/218 (70%), Gaps = 0/218 (0%) Strand=Plus/Minus Query 48549 AGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGA 48608 || ||||| || | ||| || ||| || || || || |||||||| | | |||| Sbjct 12366621 AGTCGCAAGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTTCGG 12366562 Query 48609 TCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCC 48668 | || |||| |||||| || ||||| ||||| | || || || | ||||| |||||| Sbjct 12366561 CCATCTTCCAGCTGCTTTCCAGCAAAAATCAGCCTTTGCTGGTCTGGGGGAATACCCTCC 12366502 Query 48669 TTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTA 48728 ||||| |||||| || ||| | | || ||||| ||| ||||||| ||| Sbjct 12366501 TTGTCTTGAATCTTGGCCTTAACATTGTCAATAGTATCTGAGCTCTCAACCTCCAAAGTA 12366442 Query 48729 ATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 |||||||| || || | || || |||||||||||||| Sbjct 12366441 ATCGTTTTGCCTGTAAGCGTCTTAACAAAAATCTGCAT 12366404 Score = 89.7 bits (98), Expect = 4e-13 Identities = 156/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 48540 CCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGAT 48599 || ||||| || || | || | || |||||| |||||| ||||| || ||||||| Sbjct 12367314 CCTCCCCTCAGACGAAGGACAAGGTGAAGCGTGGACTCTTTCTGAATGTTATAATCAGCC 12367255 Query 48600 AGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGA 48659 | | | || | || || | |||||| || |||||||||| | || || || | |||| Sbjct 12367254 AAAGTCCGGCCATCTTCAAGCTGCTTTCCAGCAAATATCAACCTTTGCTGGTCTGGGGGA 12367195 Query 48660 ACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACC 48719 | || || ||||| ||||| || ||| | | || ||||| ||| ||| Sbjct 12367194 ATACCTTCTTTGTCCTGTATCTTGGTCTTCACATTGTCAATAGTGTCTGAGCTCTCTACC 12367135 Query 48720 TCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 |||| ||||| || ||||| || | ||| || || ||||||||||| Sbjct 12367134 TCCAAGGTAATAGTCTTTCCGGTAAGAGTCTTCACGAAAATCTGCAT 12367088 >seq4 Length=28907061 Score = 91.5 bits (100), Expect = 1e-13 Identities = 151/218 (69%), Gaps = 0/218 (0%) Strand=Plus/Minus Query 48549 AGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGA 48608 || |||||||| | || || || ||| || ||||| ||||| |||| || | | Sbjct 27566128 AGGCGCAACACAAGGTGAAGAGTAGACTCCTTCTGAATGTTGTAGTCAGCAAGGGTCCTT 27566069 Query 48609 TCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCC 48668 | || ||||| ||||| || ||||| |||| | ||| ||||| | || | |||||| Sbjct 27566068 CCATCCTCCAATTGCTTGCCAGCAAAGATCAACCTCTGCTGATCTGGTGGGATTCCCTCC 27566009 Query 48669 TTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTA 48728 ||||| || ||| || ||| | | | | ||||| || ||||||| ||| Sbjct 27566008 TTGTCTTGTATTTTTGCCTTGACATTATCGATCGTATCTGAACTTTCTACCTCCAATGTA 27565949 Query 48729 ATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 || || ||||| |||||||| || ||||| |||||||| Sbjct 27565948 ATGGTCTTTCCAGTCAAAGTCTTCACAAAGATCTGCAT 27565911 Score = 89.7 bits (98), Expect = 4e-13 Identities = 156/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 48540 CCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGAT 48599 || ||||| || || | || | ||| || ||| || || || || |||||||| | Sbjct 27565909 CCTCCCCTCAGACGAAGGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCC 27565850 Query 48600 AGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGA 48659 | |||| | || || | |||||| || ||||| |||| | || ||||||| |||| Sbjct 27565849 AAGGTTCGGCCATCTTCGAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGATCCGGGGGA 27565790 Query 48660 ACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACC 48719 | |||||||||||| ||||| || ||| | | | ||||| ||| ||| Sbjct 27565789 ATGCCCTCCTTGTCCTGTATCTTAGCCTTCACATTGTCAATTGTGTCTGAGCTCTCAACC 27565730 Query 48720 TCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 |||| || || || || || || | |||||| |||||||||||||| Sbjct 27565729 TCCAAAGTTATTGTCTTACCAGTAAGAGTTTTCACAAAAATCTGCAT 27565683 >seq1 Length=28142018 Score = 91.5 bits (100), Expect = 1e-13 Identities = 143/205 (70%), Gaps = 0/205 (0%) Strand=Plus/Plus Query 48563 ATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCCAACTG 48622 ||| |||||| ||| || |||||||||||||||| ||| | | |||| |||||||| Sbjct 1587184 ATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCAAGAGTCCTTCCGTCTTCCAACTG 1587243 Query 48623 CTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTAATCTT 48682 ||| ||||| || || || || || || |||| |||| || |||||||| ||||| Sbjct 1587244 CTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGAATTCCTTCCTTGTCCTGGATCTT 1587303 Query 48683 TTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTTCCCGT 48742 ||| || | | | || || ||||||||| | || || || ||||| || Sbjct 1587304 GGCTTTGACGTTGTCGATGGTGTCAGAGCTCTCCACCTCAAGGGTGATGGTCTTTCCGGT 1587363 Query 48743 CAAAGTTTTTACAAAAATCTGCATC 48767 | ||||| || || || |||||| Sbjct 1587364 GAGTGTTTTCACGAAGATTTGCATC 1587388 Score = 86.0 bits (94), Expect = 5e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 48540 CCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGAT 48599 || ||||| | |||| ||| | || || ||| ||| || || ||||||||||| | Sbjct 1586411 CCACCCCTCAAACGCAGCACAAGGTGAAGAGTGGACTCCTTCTGGATATTGTAATCCGCA 1586470 Query 48600 AGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGA 48659 || | | | || ||||| || || || ||||| |||| | ||| ||||| | |||| Sbjct 1586471 AGGGTCCTTCCATCTTCCAATTGTTTGCCTGCAAAGATCAACCTCTGCTGATCTGGGGGA 1586530 Query 48660 ACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACC 48719 | || ||||| || ||||| || ||| | | | ||||| ||||||| Sbjct 1586531 ATACCTTCCTTATCCTGGATCTTAGCCTTGACATTGTCAATGGTGTCTGAGCTCTCCACC 1586590 Query 48720 TCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 |||| || || || || || |||||||| || ||||| |||||||| Sbjct 1586591 TCCAAGGTTATGGTCTTACCGGTCAAAGTCTTGACAAATATCTGCAT 1586637 >seq28803 Length=52646 Score = 89.7 bits (98), Expect = 4e-13 Identities = 156/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 48540 CCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGAT 48599 || ||||| || || | || | ||| || ||| || || || || |||||||||| | Sbjct 13187 CCTCCCCTCAGACGAAGGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCAGCT 13128 Query 48600 AGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGA 48659 | |||| | || | | |||||| || ||||| |||| | || ||||||| |||| Sbjct 13127 AAGGTTCGGCCATCTACGAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGATCCGAGGGA 13068 Query 48660 ACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACC 48719 | ||||| |||||| ||||| || ||| | | | ||||| ||| ||| Sbjct 13067 ATGCCCTTCTTGTCCTGTATCTTAGCCTTCACATTGTCAATCGTGTCTGAGCTCTCAACC 13008 Query 48720 TCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 |||| || ||||| || || || | |||||| || ||||||||||| Sbjct 13007 TCCAAAGTTATCGTCTTACCAGTAAGAGTTTTGACGAAAATCTGCAT 12961 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 380756298820473